No exit from the euro-rescuing trap?

This paper attempts a normative assessment of the input and output-oriented legitimacy of the present euro-rescuing regime on the basis of policy analyses examining the causes of present crises, the available policy options, and the impact of the policies actually chosen. Concluding that the regime lacks input-oriented legitimacy and that its claim to output-oriented legitimacy is ambivalent at best, the paper explores potential – majoritarian or unilateral – exits from the present institutional constellation that is characterized by the synthesis of a non-democratic expertocracy and an extremely asymmetric intergovernmental bargaining system.Die hier präsentierte normative Bewertung der input- und outputorientierten Legitimität des gegenwärtigen Euro-Rettungs-Regimes stützt sich auf empirisch fundierte Aussagen zu den Ursachen der Eurokrise, den prinzipiell verfügbaren Politik-Optionen und den Wirkungen der gewählten Politik. Im Ergebnis wird eine inputorientierte Legitimation verneint, während die outputorientierte Bewertung höchst ambivalent erscheint. Im Schlussteil untersucht der Text mögliche – majoritäre oder einseitige – Auswege aus einer institutionellen Konstellation, die ein nicht demokratisches Expertenregime mit inem extrem asymmetrischen intergouvernementalen Verhandlungsregime verbindet

Using the R Package crlmm for Genotyping and Copy Number Estimation

Genotyping platforms such as Affymetrix can be used to assess genotype-phenotype as well as copy number-phenotype associations at millions of markers. While genotyping algorithms are largely concordant when assessed on HapMap samples, tools to assess copy number changes are more variable and often discordant. One explanation for the discordance is that copy number estimates are susceptible to systematic differences between groups of samples that were processed at different times or by different labs. Analysis algorithms that do not adjust for batch effects are prone to spurious measures of association. The R package crlmm implements a multilevel model that adjusts for batch effects and provides allele-specific estimates of copy number. This paper illustrates a workflow for the estimation of allele-specific copy number and integration of the marker-level estimates with complimentary Bioconductor software for inferring regions of copy number gain or loss. All analyses are performed in the statistical environment R.

Mathematical Formulae in Wikimedia Projects 2020

This poster summarizes our contributions to Wikimedia's processing pipeline for mathematical formulae. We describe how we have supported the transition from rendering formulae as course-grained PNG images in 2001 to providing modern semantically enriched language-independent MathML formulae in 2020. Additionally, we describe our plans to improve the accessibility and discoverability of mathematical knowledge in Wikimedia projects further.Comment: Submitted to JCDL 2020: Proceedings of the ACM/ IEEE Joint Conference on Digital Libraries in 2020 (JCDL '20), August 1-5, 2020, Virtual Event, Chin

When Should One Substract Background Fluorescence in Two Color Microarrays?

Two color microarrays are a powerful tool for genomic analysis, but have noise components that make inferences regarding gene expression inefficient and potentially misleading. Background fluorescence,whether attributable to non-specific binding or other sources,is an important component of noise. The decision to subtract fluorescence surrounding spots of hybridization from spot fluorescence has been controversial, with no clear criteria for determining circumstances that may favor, or disfavor, background subtraction. While it is generally accepted that subtracting background reduces bias but increases variance in the estimates of the ratios of interest, no formal analysis of the bias-variance trade off of background subtraction has been undertaken. In this paper, we use simulation to systematically examine the bias-variance trade off under a variety of possible experimental conditions. Our simulation is based on data obtained from two self versus self microarray experiments and is free of distributional assumptions. Our results identify factors that are important for determining whether to background subtract, including the correlation of foreground to background intensity ratios. Using these results we develop recommendations for diagnostic visualizations that can help decisions about background subtraction

Die Europäisierung der öffentlichen Aufgaben

Die zunehmende Europäisierung der öffentlichen Aufgaben ist einer der wichtigsten Trends im Wandel der Staatstätigkeit in der Bundesrepublik Deutschland und in anderen Mitgliedstaaten der Europäischen Union. In diesem Essay werden die Stufen der Europäisierung der Staatstätigkeit nachgezeichnet, in Weiterführung von Lindberg/Scheingold (1970) und Schmitter (1996) quantifiziert und hinsichtlich ihrer Kosten und ihres Nutzen erörtert. Inhalt: Stufen der Europäisierung der öffentlichen Aufgaben Der Europäisierungsgrad der öffentlichen Aufgaben von 1950 bis zum Ende des 20. Jahrhunderts Vom Nutzen und von den Kosten der Europäisierung der öffentlichen Angelegenheiten Verzeichnis der zitierten Literatu

Using the R Package crlmm for Genotyping and Copy Number Estimation

Genotyping platforms such as Affymetrix can be used to assess genotype-phenotype as well as copy number-phenotype associations at millions of markers. While genotyping algorithms are largely concordant when assessed on HapMap samples, tools to assess copy number changes are more variable and often discordant. One explanation for the discordance is that copy number estimates are susceptible to systematic differences between groups of samples that were processed at different times or by different labs. Analysis algorithms that do not adjust for batch effects are prone to spurious measures of association. The R package crlmm implements a multilevel model that adjusts for batch effects and provides allele-specific estimates of copy number. This paper illustrates a workflow for the estimation of allele-specific copy number and integration of the marker-level estimates with complimentary Bioconductor software for inferring regions of copy number gain or loss. All analyses are performed in the statistical environment R

Study of the neutron quantum states in the gravity field

We have studied neutron quantum states in the potential well formed by the earth's gravitational field and a horizontal mirror. The estimated characteristic sizes of the neutron wave functions in the two lowest quantum states correspond to expectations with an experimental accuracy. A position-sensitive neutron detector with an extra-high spatial resolution of ~2 microns was developed and tested for this particular experiment, to be used to measure the spatial density distribution in a standing neutron wave above a mirror for a set of some of the lowest quantum states. The present experiment can be used to set an upper limit for an additional short-range fundamental force. We studied methodological uncertainties as well as the feasibility of improving further the accuracy of this experiment

A MULTILEVEL MODEL TO ADDRESS BATCH EFFECTS IN COPY NUMBER USING SNP ARRAYS

Submicroscopic changes in chromosomal DNA copy number dosage are common and have been implicated in many heritable diseases and cancers. Recent high-throughput technologies have a resolution that permits the detection of segmental changes in DNA copy number that span thousands of basepairs across the genome. Genome-wide association studies (GWAS) may simultaneously screen for copy number-phenotype and SNP-phenotype associations as part of the analytic strategy. However, genome-wide array analyses are particularly susceptible to batch effects as the logistics of preparing DNA and processing thousands of arrays often involves multiple laboratories and technicians, or changes over calendar time to the reagents and laboratory equipment. Failure to adjust for batch effects can lead to incorrect inference and requires inefficient post-hoc quality control procedures that exclude regions that are associated with batch. Our work extends previous model-based approaches for copy number estimation by explicitly modeling batch effects and using shrinkage to improve locus-specific estimates of copy number uncertainty. Key features of this approach include the use of diallelic genotype calls from experimental data to estimate batch- and locus-specific parameters of background and signal without the requirement of training data. We illustrate these ideas using a study of bipolar disease and a study of chromosome 21 trisomy. The former has batch effects that dominate much of the observed variation in quantile-normalized intensities, while the latter illustrates the robustness of our approach to datasets where as many as 25% of the samples have altered copy number. Locus-specific estimates of copy number can be plotted on the copy-number scale to investigate mosaicism and guide the choice of appropriate downstream approaches for smoothing the copy number as a function of physical position. The software is open source and implemented in the R package CRLMM available at Bioconductor (http:www.bioconductor.org)

Instances and connectors : issues for a second generation process language

This work is supported by UK EPSRC grants GR/L34433 and GR/L32699Over the past decade a variety of process languages have been defined, used and evaluated. It is now possible to consider second generation languages based on this experience. Rather than develop a second generation wish list this position paper explores two issues: instances and connectors. Instances relate to the relationship between a process model as a description and the, possibly multiple, enacting instances which are created from it. Connectors refers to the issue of concurrency control and achieving a higher level of abstraction in how parts of a model interact. We believe that these issues are key to developing systems which can effectively support business processes, and that they have not received sufficient attention within the process modelling community. Through exploring these issues we also illustrate our approach to designing a second generation process language.Postprin